Transcription factors with Perturb-seq knockdown data for SNAI3-AS1. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = SNAI3-AS1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SNAI3-AS1, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr16:88,382,901–88,383,561 | 280.1 kb | Distal (>10kb) Multiome | 166 | |
| chr16:88,452,301–88,456,281 | 207.6 kb | Distal (>10kb) Multiome | 1032 | |
| chr16:88,468,411–88,469,072 | 194.6 kb | Distal (>10kb) Multiome | 251 | |
| chr16:88,533,022–88,535,493 | 129.2 kb | Distal (>10kb) Multiome | 458 | |
| chr16:88,569,589–88,571,104 | 93.0 kb | Distal (>10kb) Multiome | 904 | |
| chr16:88,634,178–88,635,155 | 28.7 kb | Distal (>10kb) Multiome | 384 | |
| chr16:88,650,385–88,651,684 | 12.2 kb | Distal (>10kb) Multiome | 890 | |
| chr16:88,662,399–88,664,138 | 98 bp | At TSS Multiome | 943 | |
| chr16:88,686,082–88,687,017 | 23.2 kb | Distal (>10kb) Multiome | 675 | |
| chr16:88,705,859–88,706,820 | 43.1 kb | Distal (>10kb) Multiome | 838 | |
| chr16:88,737,237–88,737,815 | 74.2 kb | Distal (>10kb) Multiome | 619 | |
| chr16:88,769,688–88,770,137 | 106.5 kb | Distal (>10kb) Multiome | 282 | |
| chr16:88,770,700–88,771,325 | 107.8 kb | Distal (>10kb) Multiome | 668 | |
| chr16:88,784,542–88,785,880 | 122.1 kb | Distal (>10kb) Multiome | 811 | |
| chr16:88,802,766–88,805,068 | 140.4 kb | Distal (>10kb) Multiome | 881 | |
| chr16:88,810,968–88,812,892 | 148.7 kb | Distal (>10kb) Multiome | 1059 | |
| chr16:88,856,080–88,858,003 | 193.7 kb | Distal (>10kb) Multiome | 885 | |
| chr16:88,940,964–88,942,110 | 278.6 kb | Distal (>10kb) Multiome | 323 |
Genomic view of the SNAI3-AS1 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.